Strain Passport - Cereibacter sphaeroides
1. Taxonomy
|
Taxonomy
|
|
|---|---|
| Domain | Bacteria |
| Phylum | Proteobacteria |
| Class | Alphaproteobacteria |
| Order | Rhodobacterales |
| Family | Rhodobacteraceae |
| Genus | Cereibacter |
| Species | Cereibacter sphaeroides |
2. Assembly Statistics
|
Assembly Statistics
|
|
|---|---|
| MAGID | MAG20 |
| Size (bp) | 3810141 |
| N.contigs | 641 |
| GC (%) | 68.9 |
| N50 (bp) | 8026 |
| Coding Density | 82.9 |
| N.CDSs | 3658 |
|
Genome Completeness
|
|
|---|---|
| Completeness | 92.54 |
| Contamination | 1.61 |
| Strain heterogeneity | 25.00 |
3. Metabolism and Function (KEGG)
KEGG Function Annotation
Cereibacter sphaeroides KEGG Functional Classification
KEGG Resistome
| name | Type | Level1 | Level2 | Description | KO |
|---|---|---|---|---|---|
| ko01504 | Gene variants | Tetracycline resistance genes | Transporters | K08151 tetA; MFS transporter, DHA1 family, tetracycline resistance protein | K08151 |
| ko01504 | Gene variants | Macrolide resistance genes | Transporters | K08217 mef; MFS transporter, DHA3 family, macrolide efflux protein | K08217 |
| ko01504 | Gene variants | Phenicol resistance genes | Acetyltransferases | K00638 catB; chloramphenicol O-acetyltransferase type B [EC:2.3.1.28] | K00638 |
| ko01504 | Gene sets | CAMP resistance modules | Cationic antimicrobial peptide (CAMP) resistance, lysyl-phosphatidylglycerol (L-PG) synthase MprF [MD:M00726] | K14205 mprF, fmtC; phosphatidylglycerol lysyltransferase [EC:2.3.2.3] | K14205 |
| ko01504 | Gene sets | Multipdrug resistance modules | Multidrug resistance, efflux pump MexAB-OprM [MD:M00718] | K03585 acrA, mexA, adeI, smeD, mtrC, cmeA; membrane fusion protein, multidrug efflux system | K03585 |
| ko01504 | Gene sets | Multipdrug resistance modules | Multidrug resistance, efflux pump MexAB-OprM [MD:M00718] | K18138 acrB, mexB, adeJ, smeE, mtrD, cmeB; multidrug efflux pump | K18138 |
| ko01504 | Gene sets | Multipdrug resistance modules | Multidrug resistance, efflux pump MexJK-OprM [MD:M00642] | K18301 mexL; TetR/AcrR family transcriptional regulator, mexJK operon transcriptional repressor | K18301 |
| ko01504 | Gene sets | Multipdrug resistance modules | Multidrug resistance, efflux pump MexPQ-OpmE [MD:M00769] | K19591 cueR; MerR family transcriptional regulator, copper efflux regulator | K19591 |
| ko01504 | Gene sets | Multipdrug resistance modules | Multidrug resistance, efflux pump BpeEF-OprC [MD:M00698] | K18900 bpeT; LysR family transcriptional regulator, regulator for bpeEF and oprC | K18900 |
KEGG Toxins
| name | Type | Level1 | Level2 | Description | KO |
|---|---|---|---|---|---|
| ko02042 | Type II toxins: Membrane damaging toxins | Pore-forming toxins, Other | K03699 tlyC; magnesium and cobalt exporter, CNNM family | tlyC; magnesium and cobalt exporter, CNNM family | K03699 |
| ko02042 | Type II toxins: Membrane damaging toxins | Pore-forming toxins, Other | K11068 hlyIII; hemolysin III | hlyIII; hemolysin III | K11068 |
KEGG Bacterial Virulence
| GeneID | KO | Description | PFAM |
|---|---|---|---|
| MAG20_FKLHKN_17180 | K03596 | GTP-binding protein LepA | GTP-binding protein LepA C-terminus [PF06421.15]… |
Carbon Metabolism
Nitrogen Metabolism
4. Expert systems
AMRFinderPlus Antimicrobial Resistance
|
AMRFinderPlus
|
||||
|---|---|---|---|---|
| locus | pscc.product | gene_family | class | subclass |
| FKLHKN_00550 | Beta-lactamase | blaRHO | BETA-LACTAM | BETA-LACTAM |
| FKLHKN_11455 | Chloramphenicol acetyltransferase | catB | PHENICOL | CHLORAMPHENICOL |
Virulence factors (VFDB)
## No VFDB data5. BacDive
|
BacDive
|
|
|---|---|
| Species | Cereibacter sphaeroides |
| ncbi_taxid | 1063 |
| taxid_matching_level | species |
| type_strain | no |
| medium_name | RHODOSPIRILLACEAE MEDIUM (modified) (DSMZ Medium 27) |
| medium_link | NA |
| strain_history | NA |
| gram | NA |
| length | NA |
| width | NA |
| motility | NA |
| oxygen_tolerance | anaerobe |
| spore | NA |
| aggregation_score | NA |
| GC_content | NA |
| antibiotic_resistance_chebi | NA |
| antibiotic_resistance_metabolite | NA |
6. Publications
7. U.S. Patents
First 10 patents out of 84
| patent_number | patent_title |
|---|---|
| 10072305 | Real-time PCR for the detection of pathogens |
| 10077431 | Phage therapy of pseudomonas infections |
| 10105380 | Glycoclusters and their pharmaceutical use as antibacterials |
| 10117905 | Compositions and methods to prevent cancer with cupredoxins |
| 10159751 | ExPEC glycoconjugate vaccine formulations |
| 10179146 | Compositions and methods for mitigating drug resistant bacteria |
| 10221222 | Dermaseptin-type and piscidin-type antimicrobial peptides |
| 10238689 | Methods for combating bacterial infections by killing persister cells with mitomycin C and/or cisplatin |
| 10258640 | Method of inhibiting quorum sensing in Pseudomonas aeruginosa |
| 10260051 | Phage therapy of Pseudomonas infections |